GEO DataSets

(Submitter supplied) We established a protocol of the SuperSAGE technology combined with next-generation sequencing, coined “High-Throughput (HT-) SuperSAGE”. SuperSAGE is a method of digital gene expression profiling that allows isolation of 26-bp tag fragments from expressed transcripts. In the present protocol, index (barcode) sequences are employed to discriminate tags from different samples. Such barcodes permit to enable researchers to analyze digital tags from many transcriptomes of many samples in a single sequencing run by simply pooling the libraries. more...

Organism:

Arabidopsis thaliana; Oryza sativa; Danio rerio

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL9316 GPL9302 GPL9319

31 Samples

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(Submitter supplied) We developed a novel platform for genome-wide gene expression analysis in any eukaryotic organism, that we coin SuperSAGE Array. The SuperSAGE Array is a microarray onto which oligonucleotides of 26 nucleotides corresponding to SuperSAGE tag sequences are directly synthesized. A SuperSAGE Array combines the advantages of the highly quantitative SuperSAGE expression analysis with the high-throughput microarray technology. more...

Organism:

Nicotiana benthamiana

Type:

Expression profiling by array

Platform:

GPL3679

3 Samples

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(Submitter supplied) We developed a novel platform for genome-wide gene expression analysis in any eukaryotic organism, that we coin SuperSAGE Array. The SuperSAGE Array is a microarray onto which oligonucleotides of 26 nucleotides corresponding to SuperSAGE tag sequences are directly synthesized. A SuperSAGE Array combines the advantages of the highly quantitative SuperSAGE expression analysis with the high-throughput microarray technology. more...

Organism:

Oryza sativa

Type:

Expression profiling by array

Platform:

GPL3678

2 Samples

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(Submitter supplied) SuperSAGE Array was produced by on-chip synthesis of 26-base long oligonucleotides exactly corresponding to the tag sequences (tag probe) by NimbleGen's photolithography technology6. Oligonucleotides carrying two-base mismatches in positions no. 7 and 13 of 26-base SuperSAGE tag sequences were also synthesized on the array.

Organism:

Nicotiana benthamiana

1 Series

3 Samples

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(Submitter supplied) SuperSAGE Array was produced by on-chip synthesis of 26-base long oligonucleotides exactly corresponding to the tag sequences (tag probe) by NimbleGens photolithography technology6. Oligonucleotides carrying two-base mismatches in positions no. 7 and 13 of 26-base SuperSAGE tag sequences were also synthesized on the array.

Organism:

Oryza sativa

1 Series

2 Samples

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(Submitter supplied) Background The combination of high-throughput transcript profiling and next-generation sequencing technologies is a prerequisite for genome-wide comprehensive transcriptome analysis. Our recent innovation of deepSuperSAGE is based on an advanced SuperSAGE protocol and its combination with massively parallel pyrosequencing on Roche’s 454 sequencing platform. As a demonstration of the power of this combination, we have chosen the salt stress transcriptomes of roots and nodules of the third most important legume crop chickpea (Cicer arietinum L.). more...

Organism:

Cicer arietinum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11675

4 Samples

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(Submitter supplied) SuperSAGE was applied in the non-model organism banana (Musa acuminata)

Organism:

Musa acuminata

Type:

Expression profiling by SAGE

Platform:

GPL2542

1 Sample

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(Submitter supplied) Fatty acid-amino acid conjugates (FACs) in the oral secretion (OS) of the Manduca sexta larvae are necessary and sufficient to elicit the herbivory-specific responses in Nicotiana attenuata, an annual wild tobacco species. We used SuperSAGE combined with 454 sequencing to quantify the early transcriptional changes elicited by the FAC N-linolenoyl-glutamic acid (18:3-Glu) in N. attenuata. The second fully expanded leaf of rosette stage plants were wounded by rolling a fabric pattern wheel three times on each side of the midvein and the wounds were immediately supplied with either 20 uL of 0.02% (v/v) Tween-20/water (solvent control) or 10 uL of synthetic N-linolenoyl-glutamic acid (18:3-Glu; 0.03 nmol/µL in 0.02% (v/v) Tween-20/water). more...

Organism:

Nicotiana attenuata

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9556

2 Samples

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(Submitter supplied) Gene expression for NCI-H1299 cell line transfected with human DENND2D and vector (pcDNA3.1/V5-His TOPO TA vector) respectively.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6480

8 Samples

Download data: TXT